› 6djk

X-ray diffraction
1.85Å resolution

Structure of DNA polymerase III subunit beta from Rickettsia typhi in complex with a natural product

Released:
DOI: 10.2210/pdb6djk/pdb
PDB entry 6djk coloured by chain, front view.
PDB entry 6djk coloured by chain, side view.
PDB entry 6djk coloured by chain, top view.
Source organisms:
Entry author: Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-166594 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Beta sliding clamp Chain: A
Molecule details ›
Chain: A
Length: 389 amino acids
Theoretical weight: 43.9 KDa
Source organism: Rickettsia typhi str. Wilmington
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q68WW0 (Residues: 1-381; Coverage: 100%)
Gene names: RT0405, dnaN
Sequence domains:
ACE-MVA-MP8-NZC-LEU-MP8-LEU-MVA-PRO-MLU-GLY Chain: B
Molecule details ›
Chain: B
Length: 11 amino acids
Theoretical weight: 1.12 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand EDO 2 x EDO
Ligand PEG 1 x PEG
3 modified residues:
Ligand MVA 2 x MVA
Ligand MP8 2 x MP8
Ligand NZC 1 x NZC

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: C2
Unit cell:
a: 147.5Å b: 43.73Å c: 83.9Å
α: 90° β: 121.46° γ: 90°
R-values:
R R work R free
0.175 0.173 0.211
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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